Cheats not being disabled

[LunaMoo]

If the cheat doesn't come with special "disable" cheat, then restart the game with the cheat disabled and reload it from normal in-game save.

Savestates KEEP everything, from changes done in memory by cheats to all kind of other bugs and glitches, you should NOT depend on them soo much or at some point your game will break and you'll not have a savedata to continue from.
Games are NOT perfectly stable and will often get buggy if the game on a real console is never restarted and loading a savestate each time to continue basically simulates such situation, so this is a real problem pretty often affecting savestate abusers.